TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1703c/-:

update plot	correlation	link to info on gene
Rv3322c/-	(cc=0.4862)	info on Rv3322c/-
Rv3749c/-	(cc=0.4839)	info on Rv3749c/-
Rv1356c/-	(cc=0.4417)	info on Rv1356c/-
Rv3407/vapB47	(cc=0.4409)	info on Rv3407/vapB47
Rv2253/-	(cc=0.4393)	info on Rv2253/-
Rv3697c/vapC48	(cc=0.4335)	info on Rv3697c/vapC48
Rv2287/yjcE	(cc=0.4193)	info on Rv2287/yjcE
Rv0182c/sigG	(cc=0.4169)	info on Rv0182c/sigG
Rv1531/-	(cc=0.4109)	info on Rv1531/-
Rv2424c/-	(cc=0.4089)	info on Rv2424c/-

Correlation of Rv1703c/- with Rv3407/vapB47

Normalized LFCs for Rv1703c/-:
(description and provenance of datasets)

	Rv1703c/-	Rv3407/vapB47
Fe_supp_jason_reseq	0.107	1.306
low_pH_jason_reseq	-0.709	-0.599
NO_jason_reseq	0.381	0.268
B6_jason_reseq	0.215	-0.186
MHCII_jason_reseq	0.726	-0.317
Isoniazid02	0.179	-0.116
Rifampicin4	0.046	0.384
Ethambutol3	0.143	2.458
Meropenem3	0.689	0.599
Vancomycin16	0.093	0.618
Rv2680_day32	-0.843	-0.364
H37Rv_KO_MarP	-0.161	0.809
hypoxia_3wks	-0.048	0.387
hypoxia_6wks	-0.357	0.764
glycerol	-0.556	2.676
cholesterol	0.183	0.628
AJ	0.496	1.103
Bibs02	0.51	1.205
Bibs02c	-0.064	0.421
BL6	0.876	0.601
BL6a	0.092	1.481
BXD01	0.342	0.726
BXD010	0.054	0.576
BXD011	-0.051	0.39
BXD03	0.085	0.914
BXD04	0.0	0.613
BXD05	0.154	0.619
BXD06	0.017	1.094
BXD07	-0.151	0.637
BXD08	0.163	0.598
BXD09	0.024	0.796
CAST	0.41	0.402
CCcont	0.503	1.168
DS01	0.262	0.233
DS02	0.232	0.755
DS04	-0.059	1.436
DS0c	0.778	1.664
GP01	0.301	-0.763
GP02	0.234	2.058
GP0c	0.645	0.76
NOD	0.317	0.036
NZO	0.811	0.887
PWK	-0.196	0.381
H37Rv_KO_CtpC	-0.162	0.261
H37Rv_KO_CtpD	0.923	1.042
H37Rv_KO_Rv1272	0.317	0.999
H37Rv_KO_SugABC	0.276	0.083
H37Rv_KO_MbtN	-0.85	-0.246
Trans05	0.841	0.899
macrophage_unactivated	0.129	0.196
IL1	-0.448	-0.682
Rapamycin	-0.911	-0.918
Tcell	0.769	-0.153
GMCSF	-0.745	-0.845
IFNab	-0.357	-0.178
IFNg	-0.112	-0.58
IFNg_GMCSF1	-1.024	-0.701
Rv1432_day32	1.047	-0.137
Rv1565c_day32	0.731	0.37
secA2_input	-0.249	-0.712
delta_Rv3594	-0.295	-0.395
delta_Rv3717	-0.701	-1.515
delta_Rv3811	-0.498	-1.126
delta_Rv0954	-0.536	-1.125
PonA1	0.119	-0.569
EccD1_KO	-0.069	-0.145
EspI_KO	0.733	0.436
PE35_KO	0.718	1.353
PPE68_KO	0.787	1.382
glycerol2	0.476	0.89
lignocerate	0.554	1.445
oleate	0.352	0.577
phosphatidylcholine	0.665	0.881
acetate	-0.236	1.034
glucAc	-0.196	0.389
Rv0950ko	0.395	0.184
Rv1096ko	-0.283	-0.573
Rv3684ko	0.445	-0.157
delta_otsA_trehalose	-0.066	-1.215